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LOC127819364 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:121355707-121356705 [ Homo sapiens (human) ]

Gene ID: 127819364, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127819364
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:121355707-121356705
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic region includes an enhancer that was validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive and primed human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes two accessible chromatin subregions, one of which was validated as an enhancer and the other as a silencer based on their ability to activate or repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

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See LOC127819364 in Genome Data Viewer
Location:
chromosome: 10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (119596195..119597196)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (120493771..120494772)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (121355707..121356708)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor kinase 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121150987-121151487 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr10:121160908-121162107 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121164620-121165120 Neighboring gene microRNA 4681 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10067 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121203591-121204381 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121210069-121210568 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:121211884-121212060 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121214023-121214544 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4119 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121225296-121225796 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4120 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:121239005-121239584 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4121 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121269325-121269826 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:121269827-121270326 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:121274963-121275176 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:121275942-121276524 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4122 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4123 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4124 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2874 Neighboring gene regulator of G protein signaling 10 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2875 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2876 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2877 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4125 Neighboring gene NANOG hESC enhancer GRCh37_chr10:121303486-121303994 Neighboring gene uncharacterized LOC105378512 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2878 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:121356706-121357703 Neighboring gene TIA1 cytotoxic granule associated RNA binding protein like 1 Neighboring gene Sharpr-MPRA regulatory region 3145 Neighboring gene MPRA-validated peak1112 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr10:121396416-121396639 Neighboring gene RAD1 pseudogene 1 Neighboring gene ribosomal protein S8 pseudogene 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome. Hansen TJ, et al. Genome Res, 2022 Aug 25. PMID 35858748, Free PMC Article
  2. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 4126
  • ATAC-STARR-seq lymphoblastoid silent region 2879

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_120835.2 

    Range
    101..1102
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    119596195..119597196
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    120493771..120494772
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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